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Annotate Ensembl gene IDs with symbols and descriptions

Source: R/07_gene_annotation.R
annotate_genes.Rd

Maps Ensembl gene IDs to HGNC symbols and Entrez IDs. Uses msigdbr gene mapping as the primary source (always available with msigdbr). Falls back to org.Hs.eg.db + AnnotationDbi if msigdbr is not installed.

Usage

annotate_genes(ensembl_ids)

Arguments

ensembl_ids

Character vector of Ensembl gene IDs (versions stripped)

Value

Data frame with columns: ensembl_gene, gene_symbol, entrez_gene. Unmappable IDs have NA for symbol/entrez.

See also

Other pathway: annotate_de_results(), plot_enrichment_barplot(), plot_enrichment_dotplot(), plot_gsea_running_score(), run_gsea(), run_ora(), run_pathway_analysis()